Literature DB >> 21578806

1-[6-(9H-Carbazol-9-yl)hex-yl]-2-phenyl-1H-benzimidazole.

Yu-Ling Zhao, Tian-Zhi Yu, Jing Meng.   

Abstract

The mol-ecule of the title compound, C(31)H(29)N(3), contains a hexyl chain, a coordination unit (benzimidazole) and a functional group (carbazole). The benzimidazole ring is not coplanar with either the phenyl ring or the carbazole system, making dihedral angles of 43.26 (3) and 39.03 (2)°, respectively. The dihedral angle between the phenyl ring and the carbazole system is 24.42 (3)°. The hexyl C(β) atom (with respect to benzimidazole) deviates by 1.124 (2) Å from the benzimidazole plane, although the C(α) atom lies in the plane. The hexyl C(β) atom (with respect to carbazole) deviates by 1.315 (1) Å from the carbazole plane, although the C(α) atom lies in the plane. The crystal structure is stabilized by inter-molecular C-H⋯π inter-actions.

Entities:  

Year:  2009        PMID: 21578806      PMCID: PMC2971855          DOI: 10.1107/S1600536809046820

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For applications of benzimidazole-containing compounds as human cytomegalovirus inhibitors and anthelmintic agents, see: Spasov et al. (1999 ▶); Zhu et al. (2000 ▶). Benzimidazole derivatives can act as ligands to transition metals for modeling biological systems, see: Bouwman et al. (1990 ▶) and for organic light-emitting devices (OLEDs), see: Huang et al. (2004 ▶); Si et al. (2007 ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C31H29N3 M = 443.57 Monoclinic, a = 8.6623 (6) Å b = 31.582 (2) Å c = 8.9187 (6) Å β = 96.3120 (10)° V = 2425.1 (3) Å3 Z = 4 Mo Kα radiation μ = 0.07 mm−1 T = 293 K 0.43 × 0.18 × 0.12 mm

Data collection

Bruker SMART APEX CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.970, T max = 0.991 13496 measured reflections 4757 independent reflections 3374 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.119 S = 1.01 4757 reflections 307 parameters H-atom parameters constrained Δρmax = 0.12 e Å−3 Δρmin = −0.14 e Å−3 Data collection: SMART (Siemens, 1996 ▶); cell refinement: SAINT (Siemens, 1996 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXTL. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809046820/jh2111sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809046820/jh2111Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C31H29N3F(000) = 944
Mr = 443.57Dx = 1.215 Mg m3
Monoclinic, P21/cMelting point = 403–405 K
Hall symbol: -P 2ybcMo Kα radiation, λ = 0.71073 Å
a = 8.6623 (6) ÅCell parameters from 3325 reflections
b = 31.582 (2) Åθ = 2.4–24.3°
c = 8.9187 (6) ŵ = 0.07 mm1
β = 96.312 (1)°T = 293 K
V = 2425.1 (3) Å3Tabular, yellow
Z = 40.43 × 0.18 × 0.12 mm
Bruker SMART APEX CCD area-detector diffractometer4757 independent reflections
Radiation source: fine-focus sealed tube3374 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 26.0°, θmin = 2.4°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −10→10
Tmin = 0.970, Tmax = 0.991k = −18→38
13496 measured reflectionsl = −10→11
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.046Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.119H-atom parameters constrained
S = 1.01w = 1/[σ2(Fo2) + (0.0541P)2 + 0.1994P] where P = (Fo2 + 2Fc2)/3
4757 reflections(Δ/σ)max < 0.001
307 parametersΔρmax = 0.12 e Å3
0 restraintsΔρmin = −0.14 e Å3
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes.
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger.
xyzUiso*/Ueq
C1−0.02475 (16)0.43714 (5)0.59089 (17)0.0523 (4)
C2−0.12646 (18)0.40495 (6)0.5389 (2)0.0653 (4)
H2−0.10380.38660.46270.078*
C3−0.2618 (2)0.40148 (7)0.6050 (2)0.0791 (5)
H3−0.33130.38000.57370.095*
C4−0.2981 (2)0.42893 (7)0.7167 (2)0.0820 (6)
H4−0.39120.42560.75830.098*
C5−0.19874 (19)0.46114 (6)0.76719 (19)0.0693 (5)
H5−0.22450.47980.84120.083*
C6−0.05852 (17)0.46530 (5)0.70515 (16)0.0539 (4)
C70.07318 (18)0.49316 (5)0.73388 (16)0.0543 (4)
C80.1095 (2)0.52700 (6)0.83139 (19)0.0702 (5)
H80.03930.53600.89640.084*
C90.2502 (3)0.54688 (7)0.8303 (2)0.0851 (6)
H90.27460.56970.89450.102*
C100.3566 (2)0.53354 (6)0.7351 (2)0.0851 (6)
H100.45170.54730.73760.102*
C110.3241 (2)0.50022 (6)0.6364 (2)0.0682 (5)
H110.39560.49130.57260.082*
C120.18125 (17)0.48054 (5)0.63596 (16)0.0524 (4)
C130.19565 (18)0.42690 (5)0.42926 (17)0.0581 (4)
H13A0.24820.44830.37580.070*
H13B0.11720.41390.35780.070*
C140.31251 (17)0.39346 (5)0.48825 (18)0.0567 (4)
H14A0.36570.38300.40550.068*
H14B0.38950.40620.56170.068*
C150.23723 (17)0.35671 (5)0.56068 (18)0.0548 (4)
H15A0.15680.34510.48790.066*
H15B0.18700.36740.64500.066*
C160.34575 (17)0.32109 (5)0.61709 (19)0.0592 (4)
H16A0.43120.33270.68390.071*
H16B0.38880.30830.53190.071*
C170.26530 (18)0.28701 (5)0.70071 (17)0.0571 (4)
H17A0.34240.26720.74590.069*
H17B0.21560.30000.78140.069*
C180.14417 (17)0.26304 (5)0.59738 (16)0.0545 (4)
H18A0.07800.28330.53950.065*
H18B0.19660.24640.52680.065*
C19−0.07789 (17)0.24836 (5)0.74837 (16)0.0563 (4)
C20−0.1313 (2)0.28859 (6)0.7791 (2)0.0696 (5)
H20−0.08290.31290.74840.084*
C21−0.2595 (2)0.29058 (8)0.8573 (2)0.0839 (6)
H21−0.29850.31700.88010.101*
C22−0.3322 (2)0.25458 (9)0.9029 (2)0.0886 (6)
H22−0.41740.25730.95720.106*
C23−0.2812 (2)0.21486 (8)0.8698 (2)0.0789 (5)
H23−0.33160.19080.89940.095*
C24−0.15163 (18)0.21176 (6)0.79052 (18)0.0615 (4)
C250.04203 (18)0.19127 (5)0.67728 (17)0.0557 (4)
C260.1556 (2)0.16414 (5)0.61244 (17)0.0583 (4)
C270.1020 (2)0.12817 (6)0.5325 (2)0.0752 (5)
H27−0.00390.12250.51710.090*
C280.2057 (3)0.10106 (6)0.4763 (2)0.0905 (6)
H280.16900.07720.42270.109*
C290.3625 (3)0.10872 (7)0.4982 (2)0.0906 (6)
H290.43140.09000.46010.109*
C300.4175 (2)0.14419 (6)0.5768 (2)0.0822 (6)
H300.52360.14960.59150.099*
C310.3140 (2)0.17165 (5)0.63358 (19)0.0675 (5)
H310.35130.19550.68680.081*
N10.12011 (13)0.44707 (4)0.54812 (14)0.0530 (3)
N20.04699 (14)0.23494 (4)0.67667 (13)0.0532 (3)
N3−0.07470 (16)0.17632 (4)0.74442 (15)0.0653 (4)
U11U22U33U12U13U23
C10.0462 (8)0.0539 (9)0.0569 (9)0.0074 (7)0.0055 (7)0.0089 (7)
C20.0521 (9)0.0678 (11)0.0752 (11)0.0046 (8)0.0042 (8)−0.0036 (9)
C30.0518 (10)0.0915 (14)0.0937 (14)−0.0075 (10)0.0067 (10)−0.0035 (12)
C40.0504 (10)0.1153 (17)0.0822 (13)−0.0060 (11)0.0164 (9)0.0027 (12)
C50.0578 (10)0.0922 (14)0.0591 (10)0.0098 (10)0.0113 (8)0.0009 (9)
C60.0499 (8)0.0616 (10)0.0502 (8)0.0108 (8)0.0051 (7)0.0091 (7)
C70.0607 (9)0.0530 (9)0.0490 (8)0.0085 (8)0.0055 (7)0.0067 (7)
C80.0806 (12)0.0711 (12)0.0597 (10)0.0051 (10)0.0111 (9)−0.0055 (9)
C90.1004 (15)0.0742 (13)0.0810 (13)−0.0167 (12)0.0114 (11)−0.0152 (10)
C100.0847 (13)0.0765 (13)0.0953 (14)−0.0245 (11)0.0153 (11)−0.0006 (11)
C110.0692 (11)0.0612 (11)0.0774 (11)−0.0072 (9)0.0217 (9)0.0048 (9)
C120.0571 (9)0.0460 (9)0.0549 (9)0.0036 (7)0.0096 (7)0.0095 (7)
C130.0614 (9)0.0559 (9)0.0593 (9)0.0059 (8)0.0173 (7)0.0036 (8)
C140.0529 (9)0.0534 (9)0.0657 (10)0.0018 (7)0.0155 (7)−0.0051 (8)
C150.0470 (8)0.0543 (9)0.0633 (9)0.0027 (7)0.0069 (7)0.0011 (8)
C160.0483 (9)0.0563 (9)0.0718 (10)−0.0002 (7)0.0020 (7)−0.0010 (8)
C170.0556 (9)0.0556 (9)0.0570 (9)0.0007 (8)−0.0072 (7)0.0042 (8)
C180.0614 (9)0.0514 (9)0.0492 (8)−0.0038 (8)−0.0008 (7)0.0047 (7)
C190.0494 (9)0.0675 (10)0.0495 (8)0.0016 (8)−0.0055 (7)0.0027 (8)
C200.0620 (11)0.0741 (12)0.0698 (11)0.0063 (9)−0.0058 (9)−0.0030 (9)
C210.0653 (12)0.1049 (17)0.0790 (13)0.0191 (12)−0.0024 (10)−0.0109 (12)
C220.0565 (11)0.132 (2)0.0766 (13)0.0119 (13)0.0043 (9)0.0004 (13)
C230.0577 (11)0.1061 (16)0.0713 (11)−0.0047 (11)0.0005 (9)0.0150 (11)
C240.0500 (9)0.0769 (12)0.0552 (9)−0.0013 (9)−0.0045 (7)0.0091 (8)
C250.0596 (9)0.0544 (9)0.0509 (8)−0.0056 (8)−0.0028 (7)0.0077 (7)
C260.0719 (11)0.0510 (9)0.0514 (9)−0.0028 (8)0.0036 (8)0.0098 (7)
C270.0954 (13)0.0573 (11)0.0721 (11)−0.0074 (10)0.0051 (10)0.0008 (9)
C280.130 (2)0.0652 (13)0.0764 (13)0.0002 (14)0.0136 (13)−0.0099 (10)
C290.1219 (19)0.0758 (14)0.0791 (13)0.0205 (14)0.0334 (13)0.0018 (11)
C300.0835 (13)0.0815 (14)0.0845 (13)0.0088 (11)0.0221 (11)0.0086 (11)
C310.0760 (12)0.0589 (10)0.0680 (10)0.0024 (9)0.0101 (9)0.0019 (8)
N10.0529 (7)0.0477 (7)0.0601 (7)0.0043 (6)0.0135 (6)0.0019 (6)
N20.0552 (7)0.0522 (8)0.0506 (7)−0.0037 (6)−0.0017 (6)0.0033 (6)
N30.0630 (8)0.0658 (9)0.0659 (8)−0.0074 (7)0.0024 (7)0.0131 (7)
C1—N11.3870 (18)C16—H16A0.9700
C1—C21.391 (2)C16—H16B0.9700
C1—C61.407 (2)C17—C181.520 (2)
C2—C31.373 (2)C17—H17A0.9700
C2—H20.9300C17—H17B0.9700
C3—C41.382 (3)C18—N21.4585 (18)
C3—H30.9300C18—H18A0.9700
C4—C51.376 (3)C18—H18B0.9700
C4—H40.9300C19—N21.3823 (19)
C5—C61.395 (2)C19—C201.390 (2)
C5—H50.9300C19—C241.392 (2)
C6—C71.441 (2)C20—C211.377 (3)
C7—C81.392 (2)C20—H200.9300
C7—C121.406 (2)C21—C221.383 (3)
C8—C91.372 (3)C21—H210.9300
C8—H80.9300C22—C231.373 (3)
C9—C101.386 (3)C22—H220.9300
C9—H90.9300C23—C241.395 (2)
C10—C111.380 (3)C23—H230.9300
C10—H100.9300C24—N31.388 (2)
C11—C121.384 (2)C25—N31.3181 (19)
C11—H110.9300C25—N21.3799 (19)
C12—N11.3858 (19)C25—C261.470 (2)
C13—N11.4527 (18)C26—C311.384 (2)
C13—C141.517 (2)C26—C271.393 (2)
C13—H13A0.9700C27—C281.375 (3)
C13—H13B0.9700C27—H270.9300
C14—C151.511 (2)C28—C291.372 (3)
C14—H14A0.9700C28—H280.9300
C14—H14B0.9700C29—C301.378 (3)
C15—C161.516 (2)C29—H290.9300
C15—H15A0.9700C30—C311.383 (2)
C15—H15B0.9700C30—H300.9300
C16—C171.521 (2)C31—H310.9300
N1—C1—C2129.25 (14)H16A—C16—H16B107.8
N1—C1—C6108.82 (13)C18—C17—C16112.21 (12)
C2—C1—C6121.92 (14)C18—C17—H17A109.2
C3—C2—C1117.02 (17)C16—C17—H17A109.2
C3—C2—H2121.5C18—C17—H17B109.2
C1—C2—H2121.5C16—C17—H17B109.2
C2—C3—C4122.15 (18)H17A—C17—H17B107.9
C2—C3—H3118.9N2—C18—C17113.94 (12)
C4—C3—H3118.9N2—C18—H18A108.8
C5—C4—C3121.04 (16)C17—C18—H18A108.8
C5—C4—H4119.5N2—C18—H18B108.8
C3—C4—H4119.5C17—C18—H18B108.8
C4—C5—C6118.71 (16)H18A—C18—H18B107.7
C4—C5—H5120.6N2—C19—C20131.73 (16)
C6—C5—H5120.6N2—C19—C24106.03 (14)
C5—C6—C1119.14 (15)C20—C19—C24122.25 (16)
C5—C6—C7133.92 (15)C21—C20—C19116.48 (19)
C1—C6—C7106.93 (12)C21—C20—H20121.8
C8—C7—C12119.05 (15)C19—C20—H20121.8
C8—C7—C6134.42 (15)C20—C21—C22122.1 (2)
C12—C7—C6106.53 (13)C20—C21—H21119.0
C9—C8—C7119.13 (17)C22—C21—H21119.0
C9—C8—H8120.4C23—C22—C21121.35 (19)
C7—C8—H8120.4C23—C22—H22119.3
C8—C9—C10121.08 (18)C21—C22—H22119.3
C8—C9—H9119.5C22—C23—C24118.0 (2)
C10—C9—H9119.5C22—C23—H23121.0
C11—C10—C9121.31 (18)C24—C23—H23121.0
C11—C10—H10119.3N3—C24—C19109.88 (14)
C9—C10—H10119.3N3—C24—C23130.28 (17)
C10—C11—C12117.63 (17)C19—C24—C23119.83 (18)
C10—C11—H11121.2N3—C25—N2112.69 (14)
C12—C11—H11121.2N3—C25—C26123.34 (15)
C11—C12—N1129.06 (14)N2—C25—C26123.96 (13)
C11—C12—C7121.78 (15)C31—C26—C27118.61 (17)
N1—C12—C7109.16 (13)C31—C26—C25122.84 (15)
N1—C13—C14112.91 (12)C27—C26—C25118.47 (16)
N1—C13—H13A109.0C28—C27—C26119.99 (19)
C14—C13—H13A109.0C28—C27—H27120.0
N1—C13—H13B109.0C26—C27—H27120.0
C14—C13—H13B109.0C29—C28—C27121.0 (2)
H13A—C13—H13B107.8C29—C28—H28119.5
C15—C14—C13112.35 (12)C27—C28—H28119.5
C15—C14—H14A109.1C28—C29—C30119.8 (2)
C13—C14—H14A109.1C28—C29—H29120.1
C15—C14—H14B109.1C30—C29—H29120.1
C13—C14—H14B109.1C29—C30—C31119.6 (2)
H14A—C14—H14B107.9C29—C30—H30120.2
C14—C15—C16115.52 (12)C31—C30—H30120.2
C14—C15—H15A108.4C30—C31—C26121.00 (18)
C16—C15—H15A108.4C30—C31—H31119.5
C14—C15—H15B108.4C26—C31—H31119.5
C16—C15—H15B108.4C12—N1—C1108.55 (12)
H15A—C15—H15B107.5C12—N1—C13124.91 (12)
C15—C16—C17112.76 (12)C1—N1—C13126.53 (13)
C15—C16—H16A109.0C25—N2—C19106.15 (13)
C17—C16—H16A109.0C25—N2—C18129.05 (13)
C15—C16—H16B109.0C19—N2—C18124.10 (13)
C17—C16—H16B109.0C25—N3—C24105.24 (14)
D—H···AD—HH···AD···AD—H···A
C28—H28···Cg10.932.783.665 (2)159
C18—H18A···Cg20.972.873.596 (3)133
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
C28—H28⋯Cg10.932.783.665 (2)159
C18—H18ACg20.972.873.596 (3)133

Cg1 and Cg2 are the centroids of the 13-atom carbazole ring and the C19/C24/C25/N2/N3 imidazole ring, respectively.

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